Variant report

Variant	rs9576785
Chromosome Location	chr13:39967631-39967632
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1177828	0.81[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1186157	0.81[JPT][hapmap]
rs1535778	0.81[JPT][hapmap]
rs4941926	0.81[JPT][hapmap]
rs641027	0.80[GIH][hapmap]
rs9576784	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1036674	chr13:39841482-40008117	Bivalent Enhancer Genic enhancers Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv900008	chr13:39962791-40020267	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9576785	LHFP	cis	parietal	SCAN
rs9576785	KBTBD6	cis	cerebellum	SCAN
rs9576785	C12orf74	trans	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39959600-39968800	Weak transcription	Adipose Nuclei	Adipose
2	chr13:39960000-39979200	Weak transcription	NHDF-Ad	bronchial
3	chr13:39960600-39968800	Weak transcription	Brain Anterior Caudate	brain
4	chr13:39960600-39969000	Weak transcription	Brain Germinal Matrix	brain
5	chr13:39960800-39968000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr13:39960800-39969000	Weak transcription	Osteobl	bone
7	chr13:39962200-39968800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr13:39963800-39968600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr13:39963800-39968800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr13:39963800-39968800	Weak transcription	Aorta	Aorta
11	chr13:39963800-39969000	Weak transcription	Right Atrium	heart
12	chr13:39966600-39970000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr13:39967400-39967800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:39967400-39969200	Enhancers	Ovary	ovary
15	chr13:39967600-39968200	Weak transcription	Right Ventricle	heart
16	chr13:39967600-39969200	Weak transcription	Fetal Kidney	kidney
17	chr13:39967600-39969400	Enhancers	Brain Substantia Nigra	brain
18	chr13:39967600-39970400	Enhancers	Left Ventricle	heart

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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